genome.fa.s26.2.7.7.80.10.50.1000.10.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Gbar_D13
Parameters: 2 7 7 80 10 50 1000
Length:  60343961

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  10  of  204  ( 24404 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3158339--3158380	14	2.9	14	89	6	66	71	0	0	28	0.86
3169496--3169622	60	2.1	60	85	2	166	42	11	6	40	1.66
3170353--3170450	31	3.2	30	66	11	74	39	6	13	40	1.69
3170351--3170467	60	2.0	60	86	1	164	39	5	11	43	1.64
3174370--3174398	12	2.4	12	100	0	58	6	0	58	34	1.25
3174314--3174401	18	5.1	18	70	13	58	9	5	56	28	1.53
3177930--3177971	21	2.0	21	81	9	50	30	4	16	47	1.67
3185965--3186333	44	8.6	43	73	12	231	26	23	20	30	1.98
3185914--3186380	212	2.2	215	86	5	649	26	22	20	30	1.98
3185954--3186376	44	9.8	44	72	13	218	26	22	20	30	1.98
3216997--3217034	3	13.3	3	83	10	53	26	0	2	71	1.00
3216997--3217046	17	2.9	17	87	0	73	26	2	4	68	1.18
3217076--3217140	28	2.3	29	75	19	66	33	3	7	55	1.44
3217322--3217361	17	2.4	17	82	0	53	40	0	2	57	1.12
3227278--3227329	16	3.2	16	71	10	52	65	0	0	34	0.93
3227297--3227330	17	2.0	17	88	0	50	64	0	0	35	0.94
3227329--3227353	11	2.3	11	100	0	50	52	0	8	40	1.31
3227260--3227373	41	2.7	40	81	14	131	61	0	1	35	1.12
3228381--3228420	21	1.9	20	85	10	53	55	2	10	32	1.47
3234846--3234923	34	2.4	34	85	8	99	48	0	0	51	1.00
3235736--3235794	24	2.5	23	76	15	59	62	0	1	35	1.05
3236548--3236583	11	3.4	11	92	3	56	55	0	5	38	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3238774--3238801	5	5.6	5	100	0	56	21	0	0	78	0.75
3245522--3245555	15	2.2	16	89	5	52	50	5	14	29	1.67
3248445--3248581	67	2.0	67	94	0	238	32	18	10	37	1.86
3253515--3253548	13	2.5	14	90	4	52	50	5	23	20	1.70
3256901--3256930	11	2.7	11	94	0	51	6	0	13	80	0.91
3275873--3276036	87	1.9	88	79	3	188	35	14	13	36	1.85
3287297--3287322	5	5.2	5	100	0	52	38	0	0	61	0.96
3297288--3297318	2	15.5	2	100	0	62	0	48	0	51	1.00
3301528--3301561	17	2.0	17	88	11	52	29	0	0	70	0.87
3301776--3301891	11	10.8	11	73	13	82	40	4	0	54	1.26
3301798--3301886	31	2.9	31	87	12	130	37	3	1	58	1.22
3301776--3301894	31	3.8	31	81	13	127	39	4	0	55	1.25
3302868--3302921	17	3.1	17	76	13	56	62	3	1	31	1.23
3303626--3303700	22	3.3	23	72	17	66	48	1	2	48	1.24
3303745--3303778	16	2.1	17	88	5	52	41	11	2	44	1.56
3303850--3303899	21	2.4	22	83	10	68	34	30	8	28	1.86
3306224--3306276	25	2.0	27	85	7	74	28	3	7	60	1.41
3307058--3307086	14	2.1	14	100	0	58	62	24	0	13	1.32
3314103--3314224	23	5.3	23	82	3	147	31	24	19	23	1.98
3314103--3314224	46	2.7	46	86	0	163	31	24	19	23	1.98
3316105--3316146	21	2.0	21	85	0	57	45	11	4	38	1.62
3319076--3319136	6	10.3	6	87	3	70	63	0	29	6	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319084--3319128	23	2.0	23	86	0	63	66	0	24	8	1.20
3332408--3332601	50	3.9	50	75	6	162	30	21	26	22	1.98
3337712--3337959	50	4.9	51	80	9	231	24	27	20	27	1.99
3341046--3341095	20	2.5	20	78	9	50	38	0	8	54	1.30
3341219--3341253	13	2.7	13	100	0	70	37	22	14	25	1.92
3341996--3342041	20	2.3	20	85	3	58	36	2	2	58	1.22
3342082--3342155	31	2.3	33	76	9	80	50	2	4	43	1.35
3342988--3343028	21	1.9	22	85	14	59	70	2	4	21	1.18
3343979--3344025	13	3.6	13	75	11	51	31	10	10	46	1.73
3343975--3344025	26	2.0	26	88	0	75	29	9	11	49	1.72
3344611--3344658	21	2.3	20	82	3	51	47	6	22	22	1.73
3345675--3345747	36	2.0	36	91	0	119	35	17	4	42	1.69
3348428--3348457	14	2.1	14	93	0	51	33	16	6	43	1.74
3353414--3353474	22	2.8	22	70	9	61	44	4	19	31	1.72
3357239--3357316	35	2.3	35	80	12	92	55	3	3	37	1.37
3360399--3360465	29	2.3	30	76	10	75	41	1	5	50	1.36
3360577--3360626	17	3.1	15	85	11	55	40	2	4	54	1.31
3362963--3363278	170	1.9	171	88	2	483	46	14	14	24	1.82
3364586--3364833	133	1.9	133	82	1	318	27	23	13	36	1.92
3371620--3371674	18	3.1	18	77	15	60	40	5	12	41	1.66
3372057--3372087	15	2.0	16	93	6	55	19	6	0	74	1.03
3373075--3373117	21	2.0	21	90	0	68	27	4	9	58	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373560--3374002	224	2.0	224	97	0	832	37	6	17	39	1.74
3385905--3385940	15	2.4	15	90	0	54	33	2	0	63	1.08
3388657--3388715	21	2.7	22	79	12	68	30	3	10	55	1.49
3389889--3389933	21	2.2	20	80	11	54	48	0	0	51	1.00
3390941--3391099	86	1.8	86	100	0	318	44	11	9	35	1.73
3393428--3393462	19	1.9	17	88	11	52	34	2	28	34	1.72
3395889--3395920	8	4.0	8	95	0	55	25	15	12	46	1.81
3404025--3404054	3	10.0	3	92	0	51	30	0	33	36	1.58
3408556--3408607	24	2.2	24	92	0	86	34	1	7	55	1.39
3415554--3415640	24	3.6	24	90	0	129	25	17	6	50	1.70
3416477--3416503	14	1.9	14	100	0	54	48	29	0	22	1.51
3416809--3416849	21	2.0	21	90	0	64	24	12	9	53	1.68
3425281--3425424	73	2.0	73	91	0	234	38	18	15	27	1.91
3425780--3425893	48	2.3	47	80	14	124	57	2	7	31	1.41
3425970--3426012	3	14.3	3	100	0	86	67	0	0	32	0.91
3426436--3426461	12	2.2	12	100	0	52	7	30	53	7	1.57
3426435--3426464	12	2.6	11	90	10	51	6	33	50	10	1.62
3427998--3428060	9	6.6	10	71	10	51	42	1	1	53	1.19
3428211--3428271	17	3.6	16	78	10	59	45	1	3	49	1.28
3430892--3431181	110	2.7	107	86	5	372	21	60	5	11	1.52
3430856--3431202	21	16.2	21	80	5	347	21	60	6	11	1.53
3432234--3432271	20	1.9	20	84	10	51	26	23	2	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3433032--3433065	14	2.5	13	86	9	50	23	0	2	73	0.97
3434785--3435243	21	21.5	20	70	13	154	19	58	8	14	1.61
3434808--3435243	42	10.2	42	73	10	190	19	58	8	13	1.61
3434785--3434944	86	1.9	87	82	4	207	20	59	6	13	1.57
3434865--3435035	24	7.6	23	66	16	81	23	53	8	14	1.67
3434845--3435076	66	3.5	66	95	1	414	22	55	8	13	1.65
3435168--3435270	24	4.4	23	72	12	68	19	61	6	12	1.53
3435062--3435291	21	10.7	21	72	13	83	17	60	7	13	1.56
3436286--3436634	190	1.8	191	86	3	515	43	6	10	39	1.64
3436658--3436690	16	2.0	17	88	5	50	42	6	3	48	1.43
3438786--3438863	21	3.7	21	69	17	63	46	17	19	16	1.85
3438802--3438908	42	2.6	41	83	5	117	47	15	19	16	1.82
3439009--3439072	24	2.7	24	92	0	101	20	28	6	45	1.75
3446177--3446225	19	2.4	21	90	6	75	14	26	16	42	1.86
3450103--3450155	20	2.6	21	79	8	56	67	3	5	22	1.28
3450112--3450164	20	2.7	19	75	16	54	69	3	5	20	1.25
3451622--3451739	44	2.7	44	78	5	123	30	23	17	27	1.97
3451711--3451870	44	3.6	44	82	1	178	26	26	19	28	1.99
3452007--3452535	87	6.1	87	89	0	790	24	24	22	29	1.99
3452031--3452535	260	1.9	261	91	0	823	24	23	22	28	1.99
3459308--3459360	20	2.6	21	79	8	56	67	3	5	22	1.28
3459317--3459369	20	2.7	19	75	16	54	69	3	5	20	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3467136--3467187	24	2.2	24	85	0	68	53	9	1	34	1.45
3469101--3469152	24	2.2	24	89	0	77	55	9	1	32	1.43
3471695--3471757	31	2.0	31	87	0	90	53	12	1	31	1.48
3472697--3472761	34	1.9	33	81	9	78	24	6	1	67	1.22
3475456--3475876	87	4.8	87	89	0	563	26	24	26	22	2.00
3475678--3475813	45	3.1	45	69	10	127	28	24	26	20	1.99
3476033--3476127	44	2.1	45	84	1	120	29	20	25	25	1.99
3490788--3490835	22	2.4	19	76	13	51	62	0	10	27	1.27
3490813--3490862	14	3.7	13	78	19	57	56	2	6	36	1.36
3494399--3494454	23	2.5	22	77	8	67	57	1	3	37	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204